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Protein Overview: SYF1

General Information:
Name(s) found: SYF1 / YDR416W [SGD]
Description(s) found:
Found 28 descriptions.
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  • Member of the NineTeen Complex (NTC) that contains Prp19p and stabilizes U6 snRNA in catalytic forms of the spliceosome containing U2, U5, and U6 snRNAs; null mutant has splicing defect and arrests in G2/M; homologs in human and C. elegans [SGD]
    • Organism: Saccharomyces cerevisiae
    Length: 859 amino acids

    Gene Ontology:
    Cellular Component: spliceosomal complex [IDALink to PubMed article]
    Biological Process: cell cycle [TASLink to PubMed article]
    nuclear mRNA splicing, via spliceosome [IPILink to PubMed article][TASLink to PubMed article]
    Molecular Function: molecular_function [ND]


    Sequence:
    Sequence:
    [PDR BLAST]
    [ProtParam] 
          1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSAYIAMKGV ITNVDENIRN DEDVAFEYEI QKTPQNILTW KRYIEYWKEE GRTDKQIRWL  60
   61 YERFCSQFVT DTSIWEDYIR WESTKEVVET SRIFWLFQRC LKSCVRDCDR ICLSYLELAI 120
  121 EQYDLAMIRH ALASSLMKME REMHRKVWDP VIKFVEEKVL PLTQLDSTQE DEEESTDEAE 180
  181 LINVLLVKGF TKGGFISEEI SENGSRGDIW SSHILERYLK VAPQQKRNES LATLALTRDN 240
  241 ITIKSVYEKY LPQDENSGKY LPSSELPFEL NFNYLASLEK LGLDNQYEEF MRQMNGIYPD 300
  301 KWLFLILSLA KYYISRGRLD SCGDLLKKSL QQTLRYSDFD RIYNFYLLFE QECSQFILGK 360
  361 LKENDSKFFN QKDWTEKLQA HMATFESLIN LYDIYLNDVA LRQDSNLVET WMKRVSLQKS 420
  421 AAEKCNVYSE AILKIDPRKV GTPGSFGRLW CSYGDLYWRS NAISTARELW TQSLKVPYPY 480
  481 IEDLEEIYLN WADRELDKEG VERAFSILED ALHVPTNPEI LLEKYKNGHR KIPAQTVLFN 540
  541 SLRIWSKYID YLEAYCPKDA NSSDKIFNKT KMAYNTVIDL RLITPAMAEN FALFLQNHYE 600
  601 VMESFQVYEK TIPLFPPEIQ YELWIEYLEV ATSHQLSSLS PEHIRFLFEK ALKNLCSNGI 660
  661 DCKTIFIAYS VFEERISGLI SKSIEILRRG AVIGTVSVST HLESRLQLWR MCISKAESTL 720
  721 GPSVTRELYQ ECIQILPNSK AVEFVIKFSD FESSIGETIR AREILAYGAK LLPPSRNTEL 780
  781 WDSFEIFELK HGDKETYKDM LKMKKVLESN MLIDSASVSH EEGNINFVAA ATSHAPNSHT 840
  841 LTQSTSSYSI NPDEIELDI

    Protein Complex Data

      PUBLICATION TOPOLOGY COCOMPLEXED PROTEINS
    View Details Riffle et al. (2010) (Unpublished Data) BRR2 BUD31 CDC40 CEF1 CLF1 CWC2 CWC22 CWC23 ECM2 HSH155 ISY1 LEA1 PRP19 PRP43 PRP45 PRP46 PRP8 PRP9 RSE1 SNT309 SNU114 SPP382 SYF1
    View Details Hazbun TR, et al. (2003) BRR2 CDC40 CEF1 CLF1 CWC2 CWC22 CWC23 ECM2 ISY1 LEA1 NTR2 PRP19 PRP43 PRP45 PRP46 PRP8 SMB1 SMD1 SMD3 SMX3 SNT309 SNU114 SPP382 SYF1 SYF2 YJU2
    View Details Krogan NJ, et al. (2006) CEF1 CLF1 ISY1 NTC20 SEC6 SNT309 SYF1 SYF2
    View Details Gavin AC, et al. (2006) CDC40 CEF1 CLF1 CWC2 CWC22 ECM2 PRP19 PRP45 PRP46 SYF1
    View Details Gavin AC, et al. (2002) AAR2 BRR1 BUD31 CDC33 CDC40 CEF1 CLF1 CSN12 CUS1 CWC2 CWC22 CWC23 DHH1 DIB1 ECM2 GCN2 HSH155 HTA1 IMG1 ISY1 LEA1 LIN1 LSM1 LSM2 LSM4 LSM5 LSM6 LSM7 LUC7 MRP7 MRPL28 MRPL3 MRPL35 MRPL38 MRPL4 MRPL8 MRPS5 MSL1 MUD1 PAT1 PRP11 PRP18 PRP19 PRP2 PRP21 PRP22 PRP24 PRP28 PRP3 PRP31 PRP38 PRP39 PRP4 PRP40 PRP42 PRP43 PRP45 PRP46 PRP6 PRP8 PRP9 RSE1 RVB2 SLU7 SMB1 SMD1 SMD2 SMD3 SME1 SMX2 SMX3 SNP1 SNT309 SNU114 SNU23 SNU56 SNU66 SNU71 SPP381 SPP382 SRB2 STO1 SYF1 TOS4 UTP21 YML6
    View Details Ho Y, et al. (2002) MER1 NUM1 PAA1 PTC4 SEF1 SKT5 SPT16 SYF1 TPS1 VHS1
    View Details Qiu et al. (2008) AAR2 BRR1 BRR2 CBC2 CDC40 CEF1 CLF1 CWC15 CWC2 CWC22 CWC23 CWC25 DHR2 HSH155 ISY1 LSM4 MAK5 MUD2 PRP16 PRP18 PRP19 PRP2 PRP22 PRP24 PRP28 PRP3 PRP31 PRP38 PRP39 PRP4 PRP40 PRP43 PRP5 PRP6 PRP8 PRP9 RSE1 SLU7 SMD1 SMD3 SME1 SNP1 SNU114 SNU66 SNU71 SPP2 SPP381 SPP382 STO1 SYF1 SYF2 YHC1

    Mass Spectrometry Data

    The following runs contain data for this protein:

      BAIT COMMENTS PUBLICATION
    View Run CWC2 No Comments Hazbun TR, et al. (2003)
    View Run SPP382 No Comments Hazbun TR, et al. (2003)
    View Run SPP382 No Comments Hazbun TR, et al. (2003)
    View Run CWC25 No Comments Hazbun TR, et al. (2003)

    Yeast Two-Hybrid Data

    The following interactions contain this protein:

    SHOWING SINGLE HITS. [ Hide Single Hits ]

    [View our yeast two-hybrid interpretation guidelines.]

      BAIT PREY HITS PUBLICATION
    View Screen STE50 SYF1 2 Unpublished Fields Lab Data
    View Screen YJU2 SYF1 2 Uetz P, et al. (2000)
    View Screen BNI1 SYF1 2 Unpublished Fields Lab Data
    View Screen SPT2 SYF1 1 Unpublished Fields Lab Data
    View Screen NUC1 SYF1 1 Unpublished Fields Lab Data
    View Screen CDC11 SYF1 1 Unpublished Fields Lab Data
    View Screen BUR2 SYF1 1 Unpublished Fields Lab Data
    View Screen SGV1 SYF1 1 Unpublished Fields Lab Data

    Microscopy / Localization Data

    New Feature: Upload Your Own Microscopy Data

      PROTEIN(S) PUBLICATION
    View Data SYF1 Huh WK, et al. (2003)

    Protein Structure Data


    [What does the above image mean?]
    [View Top Sequence Alignments] [Show Ginzu Version Information]

    Domains predicted:

    #   Region(s) Method Confidence Match Description
    1 View Details [1..161] ORFEUS 14.67 Protein farnesyltransferase alpha-subunit
    2 View Details [162..254] ORFEUS 14.67 Protein farnesyltransferase alpha-subunit
    3 View Details [255..372] ORFEUS 14.67 Protein farnesyltransferase alpha-subunit
    4 View Details [373..533] PSI-BLAST 16.221849 Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
    5 View Details [534..599] PSI-BLAST 16.221849 Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
    6 View Details [600..657] PSI-BLAST 16.221849 Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
    7 View Details [658..756] ORFEUS 10.95 Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
    8 View Details [757..859] ORFEUS 10.95 Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)

    Functions predicted (by domain):

    # Gene Ontology predictions
    1
    Term Confidence Notes
  • RNA binding
    		•  2.76684454218635 bayes_pls_golite062009
  • binding
    		•  2.71974493738804 bayes_pls_golite062009
  • transcription regulator activity
    		•  1.96129657517284 bayes_pls_golite062009
  • protein binding
    		•  1.6279032205159 bayes_pls_golite062009
  • nucleic acid binding
    		•  1.62783430593918 bayes_pls_golite062009
  • DNA binding
    		•  1.62663906748938 bayes_pls_golite062009
  • transcription factor activity
    		•  0.934706586922936 bayes_pls_golite062009
  • transcription factor binding
    		•  0.441518464573089 bayes_pls_golite062009
  • transcription cofactor activity
    		•  0.19094857768269 bayes_pls_golite062009
    2 No functions predicted.
    3 No functions predicted.
    4 No functions predicted.
    5 No functions predicted.
    6 No functions predicted.
    7 No functions predicted.
    8 No functions predicted.


    Reference: Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076


    Philius Transmembrane Prediction:

    Protein predicted to be: GLOBULAR (No transmembrane regions or signal peptide)
    Confidence of classification: 0.99

    Source: Reynolds et al. (2008)

    YRC Informatics Platform - Version 3.0
    Created and Maintained by: Michael Riffle